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Table 3 Genes encoding up regulated transcription factors that changed their expression upon different temperature and light treatments

From: Light has a specific role in modulating Arabidopsis gene expression at low temperature

AGI-code and Description Control Cold/Light Cold/Dark Dark
At2g23340 AP2 domain transcription factor, putative 0.9 ± 0.1 8.9 ± 1.1 * (a) 2.8 ± 0.9 1.0 ± 0.2
At5g63790 No apical meristem (NAM) protein, NAC-domain protein, (ANAC102) 1.2 ± 0.1 4.1 ± 0.4 * 1.5 ± 0.6 0.9 ± 0.1
At2g47890 CONSTANS B-box like zinc finger family protein 1.1 ± 0.1 4.0 ± 0.5 * 1.6 ± 0.1 1.0 ± 0.2
At4g08150 KNAT1 homeobox-related protein 1.0 ± 0.1 3.9 ± 0.5 * 1.9 ± 0.6 0.7 ± 0.1
At5g05410 DRE binding protein (DREB2A) 1.0 ± 0.1 3.6 ± 0.3 * 2.0 ± 0.5 0.9 ± 0.2
At5g04340 C2H2 zinc finger transcription factor – related 1.0 ± 0.1 3.3 ± 0.3 * 1.9 ± 0.1 1.0 ± 0.1
At1g06040 zinc finger transcription factor STO 1.5 ± 0.2 3.3 ± 0.4 * 1.7 ± 0.3 0.8 ± 0.2
At4g18390 TCP family transcription factor, teosinte branched1 protein 1.0 ± 0.1 3.0 ± 0.3 * 1.5 ± 0.1 0.6 ± 0.1
At1g51700 Dof zinc finger protein ADOF1 1.0 ± 0.1 2.4 ± 0.5 * 1.1 ± 0.2 0.8 ± 0.1
At4g34590 bZIP family transcription factor, ATB2/bZip11 1.1 ± 0.1 2.4 ± 0.6 * 1.1 ± 0.1 0.9 ± 0.1
At5g54470 CONSTANS B-box zinc finger 0.9 ± 0.1 2.3 ± 0.2 * 1.3 ± 0.3 1.0 ± 0.2
At5g44190 myb family transcription factor, (GLK2) 1.1 ± 0.1 2.2 ± 0.4 * 1.1 ± 0.1 1.0 ± 0.3
At4g23750 AP2 domain transcription factor, (ERF) 0.9 ± 0.1 2.0 ± 0.3 * 1.3 ± 0.1 2.0 ± 0.9
At4g25490 C-repeat/DRE binding factor 1 (CBF1) (DREB1B) 1.1 ± 0.1 8.3 ± 2.7 4.0 ± 0.8 1.0 ± 0.2
At1g27730 salt-tolerance zinc finger protein, C2H2-type, ZAT10 1.1 ± 0.2 6.2 ± 3.7 7.2 ± 1.2 1.1 ± 0.7
At5g57660 CONSTANS B-box like zinc finger family protein (COL5) 1.4 ± 0.2 5.1 ± 1.0 4.1 ± 0.7 4.3 ± 0.5
At2g46830 MYB-related transcription factor (CCA1) 1.0 ± 0.1 3.8 ± 0.4 3.7 ± 2.1 1.0 ± 0.2
At5g59820 zinc finger protein ZAT12 1.0 ± 0.1 3.7 ± 1.1 2.3 ± 0.5 1.1 ± 0.1
At1g49720 abscisic acid responsive elements-binding factor, ABF1/AtbZip35 1.0 ± 0.1 3.4 ± 0.5 2.1 ± 0.7 0.7 ± 0.1
At4g28140 AP2 domain transcription factor, RAP2.4 0.9 ± 0.1 3.2 ± 0.6 1.7 ± 1.3 1.0 ± 0.1
At1g13260 AP2 domain transcription factor, putative (RAV1) 1.1 ± 0.1 3.1 ± 1.0 4.2 ± 0.8 0.9 ± 0.1
At5g08790 No apical meristem (NAM) protein family, NAC-domain protein (ATAF2) 1.2 ± 0.2 2.9 ± 0.5 1.3 ± 0.6 1.0 ± 0.4
At5g37260 MYB family transcription factor 0.9 ± 0.1 2.9 ± 0.4 4.4 ± 2.2 1.2 ± 0.1
At4g12040 expressed protein zinc finger protein, AN1-like 1.0 ± 0.1 2.8 ± 0.3 3.4 ± 0.5 2.2 ± 0.3
At2g45820 remorin, a non-specific DNA binding protein 1.3 ± 0.2 2.7 ± 0.5 1.9 ± 0.6 1.7 ± 0.2
At3g52800 zinc finger – like protein zinc finger protein, AN1-like 1.0 ± 0.1 2.6 ± 0.7 3.6 ± 0.8 1.6 ± 0.5
At2g22430 homeobox-leucine zipper protein ATHB-6 (HD-Zip) 1.6 ± 0.2 2.1 ± 0.5 2.1 ± 0.5 1.6 ± 0.3
At5g02840 myb family transcription factor (SANT-domain) 1.2 ± 0.1 2.1 ± 0.3 1.7 ± 0.4 2.0 ± 0.3
At4g32800 AP2 domain transcription factor TINY 1.0 ± 0.2 2.1 ± 0.1 2.3 ± 0.8 0.7 ± 0.1
At5g52510 scarecrow-like transcription factor 8 (SCL8) 1.1 ± 0.1 2.0 ± 0.2 3.6 ± 1.1 1.1 ± 0.2
At3g55980 zinc finger transcription factor (PEI1), CCCH-type 0.9 ± 0.1 1.2 ± 0.7 3.8 ± 0.4 * 1.1 ± 1.2
At3g07650 CONSTANS B-box like zinc finger (COL9) 1.0 ± 0.1 1.9 ± 0.3 3.5 ± 0.5 * 1.5 ± 0.3
At2g21650 myb family transcription factor 1.0 ± 0.1 1.3 ± 0.1 2.2 ± 1.5 0.9 ± 0.2
At5g58900 myb family transcription factor (SANT Domain) 1.1 ± 0.1 1.6 ± 0.2 2.2 ± 0.2 0.9 ± 0.2
At2g03340 WRKY family transcription factor 1.1 ± 0.1 1.7 ± 0.2 2.1 ± 0.9 0.4 ± 0.1
At3g61260 DNA-binding protein-related DNA-binding protein (dbp) 1.1 ± 0.1 1.6 ± 0.4 2.1 ± 0.5 5.2 ± 0.9
At3g16770 AP2 domain transcription factor RAP2.3 1.4 ± 0.2 1.7 ± 0.3 1.7 ± 0.3 8.5 ± 4.1
At2g25900 CCCH-type zinc finger 1.3 ± 0.1 0.8 ± 0.1 1.1 ± 0.3 5.1 ± 1.0
At5g07100 WRKY family transcription factor SPF1 1.2 ± 0.1 1.0 ± 0.1 1.7 ± 0.5 3.6 ± 0.5
At1g02340 bHLH protein (HFR1) 1.3 ± 0.2 1.6 ± 0.2 1.4 ± 0.1 2.8 ± 0.7
At1g34370 zinc finger protein-related similar, C2H2-type 1.0 ± 0.1 1.2 ± 0.2 0.8 ± 0.1 2.6 ± 0.2
At2g42280 bHLH protein family 1.0 ± 0.1 1.0 ± 0.1 1.1 ± 0.1 2.5 ± 0.1
At3g59060 bHLH protein family 1.2 ± 0.1 0.7 ± 0.2 1.1 ± 0.2 2.3 ± 0.3
At5g56140 KH domain protein 1.1 ± 0.1 1.1 ± 0.1 1.1 ± 0.1 2.3 ± 0.2
At5g11260 bZIP protein HY5 identical to HY5 0.8 ± 0.1 1.5 ± 0.2 1.3 ± 0.1 2.1 ± 0.2
At4g17460 homeobox-leucine zipper protein HAT1 (HD-Zip protein 1) 1.2 ± 0.1 0.8 ± 0.1 0.9 ± 0.1 2.1 ± 0.3
At1g13450 DNA binding protein GT-1-related 1.1 ± 0.1 0.7 ± 0.1 0.9 ± 0.1 2.1 ± 0.1
At5g37720 RNA and export factor binding protein, putative transcriptional coactivator ALY, Mus musculus 1.2 ± 0.1 1.2 ± 0.1 1.0 ± 0.1 2.0 ± 0.1
  1. Control represents internal variation (technical and/or biological) of different leaf samples from growth condition. Value ± s.e. indicates expression ratio of Treatment/Control after normalization ± standard error of the mean (n = 3–4). Genes in the table are listed according to decreasing expression ratios in different condition. The big groups of transcription factors that are up regulated at a given condition are underlined. (a)Genes that differ significantly (Students t test p-value less than 0.05) in their expression between the Cold/Light and Cold/Dark condition is marked with an asterisk (*). Values in bold indicate the quality control of gene expression (a statistical test of differential expression for a specific condition, Students t test p-value less than 0.05).